RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 019802
(335 letters)
>gnl|CDD|223222 COG0144, Sun, tRNA and rRNA cytosine-C5-methylases [Translation,
ribosomal structure and biogenesis].
Length = 355
Score = 133 bits (337), Expect = 3e-36
Identities = 61/196 (31%), Positives = 101/196 (51%), Gaps = 8/196 (4%)
Query: 126 DAEKFLMLHKGAIQLALAQLLVRNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAV 185
F H + L L ++ ++I AL + P PR +RVNTLK DV+ +
Sbjct: 46 LRPAFRYSHPEWLVEKLPDALGEDEAEAI--AAALLRPP----PRSLRVNTLKADVEELL 99
Query: 186 LELGKQ-FVVQKDDLVPDLLILPPGCDLHVHPLIVNGCVFLQGKASSMVAAALAPKPGWK 244
L + + +K ++ ++L + + P G +++Q +AS + A L PKPG +
Sbjct: 100 EALEEAGVLDEKPWVLDEVLRIEASGPIGRLPEFAEGLIYVQDEASQLPALVLDPKPGER 159
Query: 245 VLDACSAPGNKTVHLAALMKGKGKIV-ACELNKERVRRLKDTIKLSGAANIEVLHGDFLN 303
VLD C+APG KT HLA LM+ +G IV A +++ +R++RL++ +K G N+ V++ D
Sbjct: 160 VLDLCAAPGGKTTHLAELMENEGAIVVAVDVSPKRLKRLRENLKRLGVRNVIVVNKDARR 219
Query: 304 LDPKDPAYSEVSLIFC 319
L P + I
Sbjct: 220 LAELLPGGEKFDRILL 235
>gnl|CDD|237857 PRK14902, PRK14902, 16S rRNA methyltransferase B; Provisional.
Length = 444
Score = 120 bits (304), Expect = 6e-31
Identities = 50/143 (34%), Positives = 86/143 (60%), Gaps = 2/143 (1%)
Query: 166 VPKPRYVRVNTLKMDVDSAVLELGKQ-FVVQKDDLVPDLLILPPGCDLHVHPLIVNGCVF 224
P +RVNTLK+ V+ + +L ++ + V++ L P+ L++ G ++ L +G +
Sbjct: 175 EPPKASIRVNTLKISVEELIEKLEEEGYEVEESLLSPEALVIEKG-NIAGTDLFKDGLIT 233
Query: 225 LQGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKD 284
+Q ++S +VA AL PK G VLDAC+APG KT H+A L+K GK+VA ++++ +++ +++
Sbjct: 234 IQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEE 293
Query: 285 TIKLSGAANIEVLHGDFLNLDPK 307
K G NIE D + K
Sbjct: 294 NAKRLGLTNIETKALDARKVHEK 316
>gnl|CDD|233025 TIGR00563, rsmB, ribosomal RNA small subunit methyltransferase
RsmB. This protein is also known as sun protein. The
reading frame was originally interpreted as two reading
frames, fmu and fmv. The recombinant protein from E.
coli was shown to methylate only C967 of small subunit
(16S) ribosomal RNA and to produce only m5C at that
position. The seed alignment is built from bacterial
sequences only. Eukaryotic homologs include Nop2, a
protein required for processing pre-rRNA, that is likely
also a rRNA methyltransferase, although the fine
specificity may differ. Cutoff scores are set to avoid
treating archaeal and eukaroytic homologs automatically
as functionally equivalent, although they may have very
similar roles [Protein synthesis, tRNA and rRNA base
modification].
Length = 426
Score = 86.1 bits (213), Expect = 9e-19
Identities = 41/136 (30%), Positives = 68/136 (50%), Gaps = 3/136 (2%)
Query: 167 PKPRYVRVNTLKMDVDSAVLELGKQFV-VQKDDLVPDLLILPPGCDLHVHPLIVNGCVFL 225
P ++R+N K D + L + + DL PD + L +H P G V +
Sbjct: 163 RPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALPGFEEGWVTV 222
Query: 226 QGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDT 285
Q ++ VA LAP+ +LDAC+APG KT H+ L + ++VA ++++ R++R+ +
Sbjct: 223 QDASAQWVATWLAPQNEETILDACAAPGGKTTHILELA-PQAQVVALDIHEHRLKRVYEN 281
Query: 286 IK-LSGAANIEVLHGD 300
+K L E GD
Sbjct: 282 LKRLGLTIKAETKDGD 297
>gnl|CDD|188051 TIGR00446, nop2p, NOL1/NOP2/sun family putative RNA methylase.
[Protein synthesis, tRNA and rRNA base modification].
Length = 264
Score = 82.1 bits (203), Expect = 4e-18
Identities = 43/134 (32%), Positives = 64/134 (47%), Gaps = 9/134 (6%)
Query: 172 VRVNTLKMDVDSAVLELGKQFVVQKDDLVP-----DLLILPPGCDLHVHPLIVNGCVFLQ 226
+RVNTLK++V+ + L + VV + G P + G + Q
Sbjct: 1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYFFEVKESPFSIGST----PEYLFGYYYPQ 56
Query: 227 GKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTI 286
+S + AL P+ +VLD +APG KT ++ LMK KG IVA E++K R + L I
Sbjct: 57 EASSMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNI 116
Query: 287 KLSGAANIEVLHGD 300
G N V++ D
Sbjct: 117 NRMGVLNTIVINAD 130
>gnl|CDD|201649 pfam01189, Nol1_Nop2_Fmu, NOL1/NOP2/sun family.
Length = 277
Score = 78.2 bits (193), Expect = 1e-16
Identities = 46/137 (33%), Positives = 66/137 (48%), Gaps = 2/137 (1%)
Query: 166 VPKPRYVRVNTLKMDVDSAVLELGKQFVVQK--DDLVPDLLILPPGCDLHVHPLIVNGCV 223
P +R N LK S + L V + L + + P NG V
Sbjct: 7 CSPPGTLRKNVLKTKRWSLLQALELAGVQLEPLGRYPHALPVGDLPYSIGSLPPFENGAV 66
Query: 224 FLQGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLK 283
+Q +S + A AL P+ +LD C+APG KT H+A LMK +G +VA + NK+R++R+
Sbjct: 67 TVQDASSQLDAIALNPQEDEFILDMCAAPGGKTTHIAELMKNEGTVVAVDRNKQRLKRVY 126
Query: 284 DTIKLSGAANIEVLHGD 300
I+ G NI V GD
Sbjct: 127 ANIQRLGVFNIIVQEGD 143
>gnl|CDD|237856 PRK14901, PRK14901, 16S rRNA methyltransferase B; Provisional.
Length = 434
Score = 77.7 bits (192), Expect = 7e-16
Identities = 32/84 (38%), Positives = 53/84 (63%)
Query: 226 QGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDT 285
Q +++ +VA L P+PG +LDAC+APG KT H+A LM +G+I A + + R+++L++
Sbjct: 237 QDRSAQLVAPLLDPQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQEN 296
Query: 286 IKLSGAANIEVLHGDFLNLDPKDP 309
+ G +I++L D NL P
Sbjct: 297 AQRLGLKSIKILAADSRNLLELKP 320
>gnl|CDD|237858 PRK14904, PRK14904, 16S rRNA methyltransferase B; Provisional.
Length = 445
Score = 71.2 bits (175), Expect = 1e-13
Identities = 38/142 (26%), Positives = 64/142 (45%), Gaps = 10/142 (7%)
Query: 173 RVNTLKMDVDSAVLELGKQFVVQKDDLVPDLLILPPGCDLH-VHPLIVNGCVFLQGKASS 231
R+N LK + + V + +P+ + D P + G V +Q +
Sbjct: 184 RINRLKTTPEKFLAAPADASVTFEKSGLPNFFL---SKDFSLFEPFLKLGLVSVQNPTQA 240
Query: 232 MVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACEL--NK-ERVRRLKDTIKL 288
+ L P+PG VLD C+APG K+ +A LM+ +G+I A + K E++R +
Sbjct: 241 LACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASAL-- 298
Query: 289 SGAANIEVLHGDFLNLDPKDPA 310
G IE + GD + P++
Sbjct: 299 -GITIIETIEGDARSFSPEEQP 319
>gnl|CDD|184896 PRK14903, PRK14903, 16S rRNA methyltransferase B; Provisional.
Length = 431
Score = 69.1 bits (169), Expect = 5e-13
Identities = 42/144 (29%), Positives = 80/144 (55%), Gaps = 10/144 (6%)
Query: 167 PKPRYVRVNTLKMDVDSAVLELGKQFVVQKDDLVP------DLLILPPGCDLHVHPLIVN 220
P P +RVN+L + + + L ++ + VP L++ G +++ +I +
Sbjct: 161 PLPTMLRVNSLAITREEVIKILAEE----GTEAVPGKHSPFSLIVRKLGVNMNDSRVIKD 216
Query: 221 GCVFLQGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVR 280
G +QG++S +V + +PG +VLD C+APG KT +A LMK +GKI+A ++++E+++
Sbjct: 217 GLATVQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQ 276
Query: 281 RLKDTIKLSGAANIEVLHGDFLNL 304
++ K ++IE+ D L
Sbjct: 277 LVEKHAKRLKLSSIEIKIADAERL 300
>gnl|CDD|183387 PRK11933, yebU, rRNA (cytosine-C(5)-)-methyltransferase RsmF;
Reviewed.
Length = 470
Score = 65.7 bits (161), Expect = 6e-12
Identities = 57/166 (34%), Positives = 81/166 (48%), Gaps = 32/166 (19%)
Query: 153 SIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGKQ--------------FVVQKDD 198
S++D +A Q P R +RVNTLK+ V L+L F +++DD
Sbjct: 21 SMDDFIAACQRP---LRRSIRVNTLKISVA-DFLQLMAPYGWTLTPIPWCEEGFWIERDD 76
Query: 199 LVPDLLILPPG-CDLHVHPLIVNGCVFLQGKASSM--VAAALAPKPGWK-VLDACSAPGN 254
LP G H+ +G ++Q +ASSM VAA A + VLD +APG+
Sbjct: 77 EDA----LPLGNTAEHL-----SGLFYIQ-EASSMLPVAALFADDNAPQRVLDMAAAPGS 126
Query: 255 KTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGD 300
KT +AALM +G IVA E + RV+ L I G +N+ + H D
Sbjct: 127 KTTQIAALMNNQGAIVANEYSASRVKVLHANISRCGVSNVALTHFD 172
>gnl|CDD|236790 PRK10901, PRK10901, 16S rRNA methyltransferase B; Provisional.
Length = 427
Score = 64.8 bits (159), Expect = 1e-11
Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 9/132 (6%)
Query: 173 RVNTLKMDVDS--AVL-ELGKQFVVQKDDLVPDLLILPPGCDLHVHPLIVNGCVFLQGKA 229
RVN D+ A+L E G + + PD + L +H P G V +Q A
Sbjct: 175 RVNRRHHSRDAYLALLAEAGIE--AFPHAVGPDAIRLETPVPVHQLPGFAEGWVSVQDAA 232
Query: 230 SSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIK-L 288
+ + A LAP+ G +VLDAC+APG KT H+ L ++VA +++ +R+ R+++ ++ L
Sbjct: 233 AQLAATLLAPQNGERVLDACAAPGGKTAHILELAPQA-QVVALDIDAQRLERVRENLQRL 291
Query: 289 SGAANIEVLHGD 300
A V+ GD
Sbjct: 292 GLKA--TVIVGD 301
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 48.1 bits (115), Expect = 3e-07
Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 4/82 (4%)
Query: 241 PGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGD 300
PG +VLD G+ + LA L G ++ +L+ E + ++ KL+ I + GD
Sbjct: 1 PGARVLDIGCGTGSLAIELARLFPG-ARVTGVDLSPEMLELARENAKLALGPRITFVQGD 59
Query: 301 FLNLDPKDPAYSEVSLIFCIFT 322
+ + +F
Sbjct: 60 APDALDLLEGF---DAVFIGGG 78
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 46.7 bits (111), Expect = 9e-07
Identities = 16/86 (18%), Positives = 31/86 (36%), Gaps = 4/86 (4%)
Query: 244 KVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGDFLN 303
+VLD G + LA+ ++ +++ + + A N+EVL GD
Sbjct: 1 RVLDLGCGTGALALALASG--PGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEE 58
Query: 304 LDPKDPAYSEVSLIFCIFTWMIIMFH 329
L P+ +I ++
Sbjct: 59 LPPEADE--SFDVIISDPPLHHLVED 82
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 48.4 bits (116), Expect = 1e-06
Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 1/89 (1%)
Query: 232 MVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGA 291
+ + L KPG KVLD G+ + LA G G++V ++++ + ++ +K G
Sbjct: 42 ALISLLGIKPGDKVLDVACGTGDMALLLAKS-VGTGEVVGLDISESMLEVAREKLKKKGV 100
Query: 292 ANIEVLHGDFLNLDPKDPAYSEVSLIFCI 320
N+E + GD NL D ++ V++ F +
Sbjct: 101 QNVEFVVGDAENLPFPDNSFDAVTISFGL 129
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases.
Length = 169
Score = 44.4 bits (106), Expect = 1e-05
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 233 VAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA 292
+ A +PG VL+ G T L K ++ A E++ RL++ K + A
Sbjct: 5 IVRAANLRPGDTVLEIGPGKGALTEELLERAK---RVTAIEIDPRLAPRLRE--KFAAAD 59
Query: 293 NIEVLHGDFLNLD-PKDPAYSEVS 315
N+ V+HGD L D PK Y V
Sbjct: 60 NLTVIHGDALKFDLPKLQPYKVVG 83
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 44.0 bits (104), Expect = 2e-05
Identities = 20/88 (22%), Positives = 36/88 (40%)
Query: 239 PKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLH 298
K G KVLD G T LA + ++V ++++E + + K+ K G N+E +
Sbjct: 1 LKSGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAKKLGYENVEFIQ 60
Query: 299 GDFLNLDPKDPAYSEVSLIFCIFTWMII 326
GD L + ++ +
Sbjct: 61 GDIEELPQLQLEDNSFDVVISNEVLNHL 88
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 254
Score = 44.6 bits (106), Expect = 3e-05
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 6/77 (7%)
Query: 233 VAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA 292
+ + VL+ G T LA K ++VA E++ +RL++ KL+
Sbjct: 21 IVDKANLQESDTVLEIGPGKGALTTELAKRAK---QVVAIEIDPRLAKRLQE--KLALHP 75
Query: 293 NIEVLHGDFLNLD-PKD 308
N+EV+H DFL PKD
Sbjct: 76 NVEVVHQDFLKFSFPKD 92
>gnl|CDD|226608 COG4123, COG4123, Predicted O-methyltransferase [General function
prediction only].
Length = 248
Score = 43.8 bits (104), Expect = 5e-05
Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 5/105 (4%)
Query: 217 LIVNGCVFLQGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLA-ALMKGKGKIVACELN 275
+I + C F G + ++AA ++LD + GN + L A K KIV E+
Sbjct: 20 IIQDRCGFRYGTDAILLAAFAPVPKKGRILDLGA--GNGALGLLLAQRTEKAKIVGVEIQ 77
Query: 276 KERVRRLKDTIKLSG-AANIEVLHGDFLNLDPKDPAYSEVSLIFC 319
+E + + L+ I+V+ D K ++ LI C
Sbjct: 78 EEAAEMAQRNVALNPLEERIQVIEADIKEF-LKALVFASFDLIIC 121
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 41.3 bits (97), Expect = 7e-05
Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 4/79 (5%)
Query: 242 GWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA-NIEVLHGD 300
G +VLD + G + A ++V EL+ E + + L+G A + V+ GD
Sbjct: 1 GDRVLDPGAGSGAFLLAAARAGP-DARVVGVELDPEAAALARRRLALAGLAPRVRVVVGD 59
Query: 301 FLNLDPKDPAYSEVSLIFC 319
L L+
Sbjct: 60 ARELLELPDG--SFDLVLG 76
>gnl|CDD|216320 pfam01135, PCMT, Protein-L-isoaspartate(D-aspartate)
O-methyltransferase (PCMT).
Length = 210
Score = 42.4 bits (100), Expect = 1e-04
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 229 ASSMVAAA---LAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDT 285
A M A L KPG +VL+ S G T A ++ G +V+ E E V +
Sbjct: 58 APHMHAMMLELLELKPGMRVLEIGSGSGYLTACFARMVGEVGLVVSIEHIPELVEIARRN 117
Query: 286 IKLSGAANIEVLHGD 300
++ G N+ V+ GD
Sbjct: 118 LEKLGLENVIVVVGD 132
>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family.
Length = 233
Score = 42.0 bits (99), Expect = 2e-04
Identities = 23/83 (27%), Positives = 39/83 (46%)
Query: 238 APKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVL 297
K G K LD G+ T L+ GK+V ++N+ ++ + K G NIE L
Sbjct: 44 GVKRGNKFLDVAGGTGDWTFGLSDSAGSSGKVVGLDINENMLKEGEKKAKEEGKYNIEFL 103
Query: 298 HGDFLNLDPKDPAYSEVSLIFCI 320
G+ L +D ++ V++ F +
Sbjct: 104 QGNAEELPFEDDSFDIVTISFGL 126
>gnl|CDD|233880 TIGR02469, CbiT, precorrin-6Y C5,15-methyltransferase
(decarboxylating), CbiT subunit. This model recognizes
the CbiT methylase which is responsible, in part (along
with CbiE), for methylating precorrin-6y (or
cobalt-precorrin-6y) at both the 5 and 15 positions as
well as the concomitant decarbozylation at C-12. In many
organisms, this protein is fused to the CbiE subunit.
The fused protein, when found in organisms catalyzing
the oxidative version of the cobalamin biosynthesis
pathway, is called CobL [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 124
Score = 38.8 bits (91), Expect = 7e-04
Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 235 AALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANI 294
+ L +PG + D + G+ T+ A L+ G++ A E N E + ++ ++ G +NI
Sbjct: 13 SKLRLRPGDVLWDIGAGTGSVTIEAARLV-PNGRVYAIERNPEALDLIERNLRRFGVSNI 71
Query: 295 EVLHGDFLNLDPKDP 309
++ GD
Sbjct: 72 VIVEGDAPEAPEDLL 86
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 37.6 bits (88), Expect = 0.003
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 235 AALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANI 294
+ L P+PG ++ D + G+ T+ A G+++A E ++E + ++ G N+
Sbjct: 28 SKLRPRPGDRLWDIGAGTGSITIEWALAGP-SGRVIAIERDEEALELIERNAARFGVDNL 86
Query: 295 EVLHGD 300
EV+ GD
Sbjct: 87 EVVEGD 92
>gnl|CDD|234689 PRK00216, ubiE, ubiquinone/menaquinone biosynthesis
methyltransferase; Reviewed.
Length = 239
Score = 37.8 bits (89), Expect = 0.004
Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 13/80 (16%)
Query: 232 MVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELN-------KERVRRLKD 284
L +PG KVLD G+ + LA + G++V + + +E++R
Sbjct: 42 KTIKWLGVRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLR---- 97
Query: 285 TIKLSGAANIEVLHGDFLNL 304
L + N+E + GD L
Sbjct: 98 --DLGLSGNVEFVQGDAEAL 115
>gnl|CDD|237872 PRK14968, PRK14968, putative methyltransferase; Provisional.
Length = 188
Score = 36.4 bits (85), Expect = 0.009
Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 230 SSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKG-KIVACELNKERVRRLKDTIKL 288
S ++A K G +VL+ G + +A + G K+V ++N V K KL
Sbjct: 12 SFLLAENAVDKKGDRVLEV----GTGSGIVAIVAAKNGKKVVGVDINPYAVECAKCNAKL 67
Query: 289 SG--AANIEVLHGD-FLNLDPKD 308
+ +EV+ D F
Sbjct: 68 NNIRNNGVEVIRSDLFEPFRGDK 90
>gnl|CDD|223109 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation)
[Translation, ribosomal structure and biogenesis].
Length = 259
Score = 36.4 bits (85), Expect = 0.014
Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 5/80 (6%)
Query: 233 VAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA 292
+ A PG VL+ G T L ++ A E+++ LK+ + +
Sbjct: 22 IVEAANISPGDNVLEIGPGLGALTEPLLERAA---RVTAIEIDRRLAEVLKE--RFAPYD 76
Query: 293 NIEVLHGDFLNLDPKDPAYS 312
N+ V++GD L D A
Sbjct: 77 NLTVINGDALKFDFPSLAQP 96
>gnl|CDD|226607 COG4122, COG4122, Predicted O-methyltransferase [General function
prediction only].
Length = 219
Score = 35.8 bits (83), Expect = 0.015
Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 226 QGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDT 285
G ++A PK ++L+ +A G + +A + G++ E ++ER ++
Sbjct: 47 TGALLRLLARLSGPK---RILEIGTAIGYSALWMALALPDDGRLTTIERDEERAEIAREN 103
Query: 286 IKLSGAAN-IEVLHGD 300
+ +G + IE+L G
Sbjct: 104 LAEAGVDDRIELLLGG 119
>gnl|CDD|203189 pfam05175, MTS, Methyltransferase small domain. This domain is
found in ribosomal RNA small subunit methyltransferase C
as well as other methyltransferases .
Length = 170
Score = 35.2 bits (82), Expect = 0.018
Identities = 19/81 (23%), Positives = 31/81 (38%), Gaps = 4/81 (4%)
Query: 223 VFLQGK---ASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERV 279
VF G+ S ++ + L G KVLD G LA ++ ++N +
Sbjct: 10 VFSHGRLDIGSRLLLSHLPKPLGGKVLDLGCGYGVLGAALAK-RSPDLEVTMVDINARAL 68
Query: 280 RRLKDTIKLSGAANIEVLHGD 300
+ + +G N EV D
Sbjct: 69 ESARANLAANGLENGEVFWSD 89
>gnl|CDD|183025 PRK11188, rrmJ, 23S rRNA methyltransferase J; Provisional.
Length = 209
Score = 34.7 bits (80), Expect = 0.037
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 11/62 (17%)
Query: 240 KPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHG 299
KPG V+D +APG + + + KG+++AC D + + ++ L G
Sbjct: 50 KPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIAC-----------DILPMDPIVGVDFLQG 98
Query: 300 DF 301
DF
Sbjct: 99 DF 100
>gnl|CDD|225316 COG2518, Pcm, Protein-L-isoaspartate carboxylmethyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 209
Score = 34.5 bits (80), Expect = 0.038
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 8/76 (10%)
Query: 229 ASSMVA---AALAPKPGWKVLDACSAPGNKTVHLAALM-KGKGKIVACELNKERVRRLKD 284
A MVA L KPG +VL+ + G + AA++ + G++V+ E +E + +
Sbjct: 57 APHMVARMLQLLELKPGDRVLEIGTGSG----YQAAVLARLVGRVVSIERIEELAEQARR 112
Query: 285 TIKLSGAANIEVLHGD 300
++ G N+ V HGD
Sbjct: 113 NLETLGYENVTVRHGD 128
>gnl|CDD|225318 COG2520, COG2520, Predicted methyltransferase [General function
prediction only].
Length = 341
Score = 35.0 bits (81), Expect = 0.039
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 259 LAALMKGKGKIVACELNKERVRRLKDTIKLSGAAN-IEVLHGD 300
+ KG+ K+ A ++N + V LK+ I+L+ +E + GD
Sbjct: 204 IPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGRVEPILGD 246
>gnl|CDD|129571 TIGR00479, rumA, 23S rRNA (uracil-5-)-methyltransferase RumA. This
protein family was first proposed to be RNA
methyltransferases by homology to the TrmA family. The
member from E. coli has now been shown to act as the 23S
RNA methyltransferase for the conserved U1939. The gene
is now designated rumA and was previously designated
ygcA [Protein synthesis, tRNA and rRNA base
modification].
Length = 431
Score = 35.2 bits (81), Expect = 0.049
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 244 KVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGDFLN 303
V+DA G T+ LA K +V E+ E V + + +L+G AN+E L G
Sbjct: 295 LVVDAYCGVGTFTLPLA---KQAKSVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLET 351
Query: 304 LDPKDP 309
+ PK P
Sbjct: 352 VLPKQP 357
>gnl|CDD|202251 pfam02475, Met_10, Met-10+ like-protein. The methionine-10 mutant
allele of N. crassa codes for a protein of unknown
function. However, homologous proteins have been found
in yeast suggesting this protein may be involved in
methionine biosynthesis, transport and/or utilisation.
Length = 199
Score = 34.2 bits (79), Expect = 0.054
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 240 KPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAAN-IEVLH 298
K G V+D + G ++ +A K K ++ A ELN E V+ LK+ IKL+ I +
Sbjct: 99 KEGEVVVDMFAGIGPFSIPIAKHSKAK-RVYAVELNPEAVKYLKENIKLNKVEGVISPIL 157
Query: 299 GD 300
GD
Sbjct: 158 GD 159
>gnl|CDD|232816 TIGR00080, pimt, protein-L-isoaspartate(D-aspartate)
O-methyltransferase. This is an all-kingdom (but not
all species) full-length ortholog enzyme for repairing
aging proteins. Among the prokaryotes, the gene name is
pcm. Among eukaryotes, pimt [Protein fate, Protein
modification and repair].
Length = 215
Score = 34.4 bits (79), Expect = 0.056
Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 232 MVAAA---LAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKL 288
MVA L KPG KVL+ + G + LA ++ G +V+ E E + + ++
Sbjct: 65 MVAMMTELLELKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRK 124
Query: 289 SGAANIEVLHGD 300
G N+ V+ GD
Sbjct: 125 LGLDNVIVIVGD 136
>gnl|CDD|216840 pfam02005, TRM, N2,N2-dimethylguanosine tRNA methyltransferase.
This enzyme EC:2.1.1.32 used S-AdoMet to methylate tRNA.
The TRM1 gene of Saccharomyces cerevisiae is necessary
for the N2,N2-dimethylguanosine modification of both
mitochondrial and cytoplasmic tRNAs. The enzyme is found
in both eukaryotes and archaebacteria.
Length = 375
Score = 34.7 bits (80), Expect = 0.066
Identities = 20/61 (32%), Positives = 35/61 (57%)
Query: 240 KPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHG 299
G VLDA SA G + + A + G ++ A +++ + V +K+ +KL+ NI V++G
Sbjct: 48 GRGIIVLDALSASGIRAIRFALEVPGVEEVFANDISPKAVELIKENVKLNEVENIVVING 107
Query: 300 D 300
D
Sbjct: 108 D 108
>gnl|CDD|235286 PRK04338, PRK04338, N(2),N(2)-dimethylguanosine tRNA
methyltransferase; Provisional.
Length = 382
Score = 34.5 bits (80), Expect = 0.074
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 233 VAAALAPK-PGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGA 291
V A PK P VLDA SA G + + AL G K+ ++N + V +K ++L+G
Sbjct: 48 VLRAFGPKLPRESVLDALSASGIRGIR-YALETGVEKVTLNDINPDAVELIKKNLELNGL 106
Query: 292 ANIEVLHGDF 301
N +V + D
Sbjct: 107 ENEKVFNKDA 116
>gnl|CDD|236925 PRK11544, hycI, hydrogenase 3 maturation protease; Provisional.
Length = 156
Score = 33.0 bits (76), Expect = 0.084
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 238 APKPGWKVLDACSAPGNKTVHLAALMKGKGKIV-ACELN 275
APK GW V+D SAP N V + L + IV A ++
Sbjct: 29 APKGGWVVIDGGSAPENDIVAIRELRPERLLIVDATDMG 67
>gnl|CDD|223370 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure
and biogenesis].
Length = 205
Score = 33.7 bits (78), Expect = 0.087
Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 240 KPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHG 299
KPG V+D +APG + A + GKIVA ++ +K + L G
Sbjct: 44 KPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILP---------MKP--IPGVIFLQG 92
Query: 300 DFLN 303
D +
Sbjct: 93 DITD 96
>gnl|CDD|232976 TIGR00438, rrmJ, cell division protein FtsJ. Methylates the 23S
rRNA. Previously known as cell division protein ftsJ.//
Trusted cutoff too high? [SS 10/1/04] [Protein
synthesis, tRNA and rRNA base modification].
Length = 188
Score = 33.3 bits (76), Expect = 0.094
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 11/62 (17%)
Query: 240 KPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHG 299
KPG VLD +APG + + GKG+++A +L + N++ + G
Sbjct: 31 KPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQ-----------PMKPIENVDFIRG 79
Query: 300 DF 301
DF
Sbjct: 80 DF 81
>gnl|CDD|226562 COG4076, COG4076, Predicted RNA methylase [General function
prediction only].
Length = 252
Score = 33.3 bits (76), Expect = 0.13
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 268 KIVACELNKERVRRLKDTIKLSGAANIEVLHGDFLNLD 305
+++A E + +R R ++ + + G N EV+ GD + D
Sbjct: 56 RVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYD 93
>gnl|CDD|131799 TIGR02752, MenG_heptapren, demethylmenaquinone methyltransferase.
MenG is a generic term for a methyltransferase that
catalyzes the last step in menaquinone biosynthesis; the
exact enzymatic activity differs for different MenG
because the menaquinone differ in their prenoid side
chains in different species. Members of this MenG
protein family are 2-heptaprenyl-1,4-naphthoquinone
methyltransferase, and are found together in operons
with the two subunits of the heptaprenyl diphosphate
synthase in Bacillus subtilis and related species
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Menaquinone and ubiquinone].
Length = 231
Score = 33.2 bits (76), Expect = 0.14
Identities = 17/79 (21%), Positives = 41/79 (51%)
Query: 240 KPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHG 299
+ G LD C + ++ LA + +G ++ + ++ + + +K +G N+E++HG
Sbjct: 44 QAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHG 103
Query: 300 DFLNLDPKDPAYSEVSLIF 318
+ + L D ++ V++ F
Sbjct: 104 NAMELPFDDNSFDYVTIGF 122
>gnl|CDD|184931 PRK14967, PRK14967, putative methyltransferase; Provisional.
Length = 223
Score = 32.7 bits (75), Expect = 0.17
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 229 ASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKL 288
A ++ A L P G +VLD C+ G V AA G G + A ++++ VR + L
Sbjct: 26 ADALAAEGLGP--GRRVLDLCTGSGALAVAAAAA--GAGSVTAVDISRRAVRSARLNALL 81
Query: 289 SGAANIEVLHGDFL 302
+G +++V GD+
Sbjct: 82 AG-VDVDVRRGDWA 94
>gnl|CDD|234248 TIGR03534, RF_mod_PrmC, protein-(glutamine-N5) methyltransferase,
release factor-specific. Members of this protein family
are HemK (PrmC), a protein once thought to be involved
in heme biosynthesis but now recognized to be a
protein-glutamine methyltransferase that modifies the
peptide chain release factors. All members of the seed
alignment are encoded next to the release factor 1 gene
(prfA) and confirmed by phylogenetic analysis. SIMBAL
analysis (manuscript in prep.) shows the motif
[LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers
specificity for the release factors rather than for
ribosomal protein L3 [Protein fate, Protein modification
and repair].
Length = 251
Score = 32.4 bits (75), Expect = 0.22
Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 3/73 (4%)
Query: 232 MVAAALA--PKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLS 289
+V AAL K +VLD + G + LA ++ A +++ E + +
Sbjct: 76 LVEAALERLKKGPLRVLDLGTGSGAIALALAKERPDA-RVTAVDISPEALAVARKNAARL 134
Query: 290 GAANIEVLHGDFL 302
G N+E L D+
Sbjct: 135 GLDNVEFLQSDWF 147
>gnl|CDD|234649 PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.
Length = 202
Score = 31.7 bits (73), Expect = 0.36
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 245 VLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGD 300
L+ G V +A + E+++ V + I+ G N+ +L GD
Sbjct: 44 HLEIGFGKGEFLVEMAKANPDIN-FIGIEVHEPGVGKALKKIEEEGLTNLRLLCGD 98
>gnl|CDD|184409 PRK13942, PRK13942, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 212
Score = 31.1 bits (71), Expect = 0.51
Identities = 26/75 (34%), Positives = 36/75 (48%), Gaps = 3/75 (4%)
Query: 229 ASSMVA---AALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDT 285
A MVA L K G KVL+ + G +A ++ GK+V E E + K T
Sbjct: 61 AIHMVAIMCELLDLKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKT 120
Query: 286 IKLSGAANIEVLHGD 300
+K G N+EV+ GD
Sbjct: 121 LKKLGYDNVEVIVGD 135
>gnl|CDD|240367 PTZ00338, PTZ00338, dimethyladenosine transferase-like protein;
Provisional.
Length = 294
Score = 31.5 bits (72), Expect = 0.53
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 253 GNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA-NIEVLHGDFLNLD 305
GN T L L K K++A E++ V LK + S A +EV+ GD L +
Sbjct: 48 GNLTEKL--LQLAK-KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTE 98
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 31.1 bits (71), Expect = 0.57
Identities = 19/83 (22%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 228 KASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIK 287
K + + A L PG +VL+A + G T +LA + +G + E+ ++ + ++ +
Sbjct: 81 KDAGYIVARLGISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLS 140
Query: 288 LSGAAN-IEVLHGDFLN-LDPKD 308
G + + + GD +D +D
Sbjct: 141 EFGLGDRVTLKLGDVREGIDEED 163
>gnl|CDD|140001 PRK13944, PRK13944, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 205
Score = 30.9 bits (70), Expect = 0.61
Identities = 19/71 (26%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 231 SMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKE-RVRRLKDTIKLS 289
+M+ + P+PG K+L+ + G + A ++ +GK+ E+ KE + ++ +L
Sbjct: 62 AMMCELIEPRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLG 121
Query: 290 GAANIEVLHGD 300
+EV HGD
Sbjct: 122 YWGVVEVYHGD 132
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 31.7 bits (72), Expect = 0.67
Identities = 30/130 (23%), Positives = 61/130 (46%), Gaps = 19/130 (14%)
Query: 82 KHLSIIKQVLDSASILNSKWKRQEELVYILTYDILFG---QEISLVGDAEKFL-----ML 133
KH + K L+ S+L+S ++E+++ L ++ LFG ++I + D+E F+ ++
Sbjct: 351 KHYASFKFSLEMLSMLDSLLIKKEKILNNL-FNKLFGDLKEKIETLLDSEYFISKYTNII 409
Query: 134 HKGAIQLALAQLLVRNKVKSIEDLMALYQTPDVPKPRYVRVNTLKMDVDSAVLELGKQFV 193
L A+ +++ + I D ALY + + +K D + EL K+ +
Sbjct: 410 SLSEHTLKAAEDVLKENSQKIADY-ALYSN--------LEIIEIKKKYDEKINEL-KKSI 459
Query: 194 VQKDDLVPDL 203
Q L+ +
Sbjct: 460 NQLKTLISIM 469
>gnl|CDD|233415 TIGR01444, fkbM_fam, methyltransferase, FkbM family. Members of
this family are characterized by two well-conserved
short regions separated by a variable in both sequence
and length. The first of the two regions is found in a
large number of proteins outside this subfamily, a
number of which have been characterized as
methyltransferases. One member of the present family,
FkbM, was shown to be required for a specific
methylation in the biosynthesis of the immunosuppressant
FK506 in Streptomyces strain MA6548.
Length = 144
Score = 30.4 bits (69), Expect = 0.68
Identities = 12/54 (22%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 245 VLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLH 298
V+D + G+ +++ A +G+++A E + L++ +KL+ N+ +L+
Sbjct: 2 VIDVGANIGDFSLY-FARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLLN 54
>gnl|CDD|237568 PRK13943, PRK13943, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 322
Score = 31.0 bits (70), Expect = 0.85
Identities = 13/59 (22%), Positives = 28/59 (47%)
Query: 242 GWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGD 300
G +VL+ G ++ ++ KG +V+ E +++ K ++ G N+ + GD
Sbjct: 81 GMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGD 139
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 30.3 bits (69), Expect = 1.1
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 235 AALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVA 271
LA +PG +VLD PGN LA + +G++V
Sbjct: 13 ELLAVQPGDRVLDVGCGPGNDARELARRVGPEGRVVG 49
>gnl|CDD|234708 PRK00274, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1
family protein; Reviewed.
Length = 272
Score = 30.5 bits (70), Expect = 1.1
Identities = 11/48 (22%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 261 ALMKGKGKIVACELNKERVRRLKDTIKLSGAANIEVLHGDFLNLDPKD 308
L++ K+ A E++++ L +T N+ ++ GD L +D +
Sbjct: 59 PLLERAAKVTAVEIDRDLAPILAETFAED---NLTIIEGDALKVDLSE 103
>gnl|CDD|224780 COG1867, TRM1, N2,N2-dimethylguanosine tRNA methyltransferase
[Translation, ribosomal structure and biogenesis].
Length = 380
Score = 30.0 bits (68), Expect = 1.8
Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 233 VAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA 292
V A +VLDA SA G + + A+ G K+V +++ + V +K+ ++L+
Sbjct: 44 VLKAFGKLLPKRVLDALSATGIRGIR-YAVETGVVKVVLNDISPKAVELIKENVRLNSGE 102
Query: 293 NIEVLHGD 300
+ EV++ D
Sbjct: 103 DAEVINKD 110
>gnl|CDD|225174 COG2265, TrmA, SAM-dependent methyltransferases related to tRNA
(uracil-5-)-methyltransferase [Translation, ribosomal
structure and biogenesis].
Length = 432
Score = 30.0 bits (68), Expect = 1.8
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 3/68 (4%)
Query: 233 VAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA 292
L G +VLD G + LA K K+ E++ E V ++ +G
Sbjct: 285 ALEWLELAGGERVLDLYCGVGTFGLPLA---KRVKKVHGVEISPEAVEAAQENAAANGID 341
Query: 293 NIEVLHGD 300
N+E + GD
Sbjct: 342 NVEFIAGD 349
>gnl|CDD|183769 PRK12819, flgG, flagellar basal body rod protein FlgG; Reviewed.
Length = 257
Score = 29.5 bits (66), Expect = 2.1
Identities = 14/56 (25%), Positives = 19/56 (33%), Gaps = 5/56 (8%)
Query: 1 MARTKTAATAPSGASAKTSRNGRLSNAERSAYFARRE-----AAKVLRLVLRGDAR 51
M P GA +G L +A AR + A + RLV R +
Sbjct: 135 MGENNERIRIPEGAKVAVQADGTLYDAVTQNNIARLQTKTVSAEQNDRLVQRENKS 190
>gnl|CDD|233115 TIGR00755, ksgA, dimethyladenosine transferase. In both E. coli
and Saccharomyces cerevisiae, this protein is
responsible for the dimethylation of two adjacent
adenosine residues in a conserved hairpin of 16S rRNA in
bacteria, 18S rRNA in eukaryotes. This adjacent
dimethylation is the only rRNA modification shared by
bacteria and eukaryotes. A single member of this family
is present in each of the first 20 completed microbial
genomes. This protein is essential in yeast, but not in
E. coli, where its deletion leads to resistance to the
antibiotic kasugamycin. Alternate name:
S-adenosylmethionine--6-N',N'-adenosyl (rRNA)
dimethyltransferase [Protein synthesis, tRNA and rRNA
base modification].
Length = 253
Score = 29.5 bits (67), Expect = 2.2
Identities = 21/73 (28%), Positives = 32/73 (43%), Gaps = 5/73 (6%)
Query: 233 VAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTIKLSGAA 292
+ A G VL+ G T L K K+ A E+++ RL+ LS
Sbjct: 21 IVEAANVLEGDVVLEIGPGLGALTEPLLKRAK---KVTAIEIDRRLAERLRK--LLSLYE 75
Query: 293 NIEVLHGDFLNLD 305
N+E++ GD L +D
Sbjct: 76 NLEIIEGDALKVD 88
>gnl|CDD|217132 pfam02597, ThiS, ThiS family. ThiS (thiaminS) is a 66 aa protein
involved in sulphur transfer. ThiS is coded in the
thiCEFSGH operon in E. coli. This family of proteins
have two conserved Glycines at the COOH terminus.
Thiocarboxylate is formed at the last G in the
activation process. Sulphur is transferred from ThiI to
ThiS in a reaction catalyzed by IscS. MoaD, a protein
involved sulphur transfer in molybdopterin synthesis, is
about the same length and shows limited sequence
similarity to ThiS. Both have the conserved GG at the
COOH end.
Length = 70
Score = 26.8 bits (60), Expect = 3.4
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 5/65 (7%)
Query: 235 AALAPKPGWKVLDACSAPGNKTVH-LAALMKGKGKIVACELNKERVRRLKDTIKLSGAAN 293
A L G ++ P TV L + + VA +N E V R + L
Sbjct: 5 AELRELAGKELEL----PEGATVAELLEALGLNPERVAVAVNGEIVPRSQADTPLKDGDE 60
Query: 294 IEVLH 298
+ ++
Sbjct: 61 VAIIP 65
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 28.6 bits (64), Expect = 4.1
Identities = 14/67 (20%), Positives = 29/67 (43%), Gaps = 1/67 (1%)
Query: 242 GWKVLDACSAPGNKTVHLAALMKGKGKIVACELNKERVRRLKDTI-KLSGAANIEVLHGD 300
G +LD G+ TV + L+ GK+ A + +++ + + K NI ++ G+
Sbjct: 41 GDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGE 100
Query: 301 FLNLDPK 307
+
Sbjct: 101 APEILFT 107
>gnl|CDD|201880 pfam01596, Methyltransf_3, O-methyltransferase. Members of this
family are O-methyltransferases. The family includes
catechol o-methyltransferase, caffeoyl-CoA
O-methyltransferase and a family of bacterial
O-methyltransferases that may be involved in antibiotic
production.
Length = 204
Score = 28.5 bits (64), Expect = 4.6
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 267 GKIVACELNKERVRRLKDTIKLSGAAN-IEVLHGDFLN-LDP--KDPAYSEVSLIF 318
GKI AC+++ E I+ +G A+ I GD L L+ KD E IF
Sbjct: 70 GKITACDIDPEAYEIGLPFIQKAGVADKISFRLGDALPTLEELVKDKPLGEFDFIF 125
>gnl|CDD|235639 PRK05899, PRK05899, transketolase; Reviewed.
Length = 586
Score = 28.6 bits (65), Expect = 5.9
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 290 GAANI-EVLHGDFLNLDPKDP 309
GAA+I VL FL DPK+P
Sbjct: 36 GAADIAYVLWTRFLRHDPKNP 56
>gnl|CDD|216666 pfam01728, FtsJ, FtsJ-like methyltransferase. This family consists
of FtsJ from various bacterial and archaeal sources FtsJ
is a methyltransferase, but actually has no effect on
cell division. FtsJ's substrate is the 23S rRNA. The 1.5
A crystal structure of FtsJ in complex with its cofactor
S-adenosylmethionine revealed that FtsJ has a
methyltransferase fold. This family also includes the N
terminus of flaviviral NS5 protein. It has been
hypothesised that the N-terminal domain of NS5 is a
methyltransferase involved in viral RNA capping.
Length = 177
Score = 27.6 bits (62), Expect = 6.5
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 237 LAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACELN 275
L P G VLD +APG + L G GK+VA +L
Sbjct: 18 LKPGKGKTVLDLGAAPGGFSQVLLERG-GAGKVVAVDLG 55
>gnl|CDD|189017 cd09610, M3B_PepF_5, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 472
Score = 28.0 bits (63), Expect = 7.8
Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 7/65 (10%)
Query: 43 RLVLRGDARRRAVGSIKSLVYSPSVKNKKATYALVCQTLKHLSIIKQVLDSASILNS--K 100
L D + + I +L+ SP + +K + + LK S I N+ K
Sbjct: 72 SLRFEFDGEKLTLEEILALLRSPDREVRKKAAKALTKGLKKNSRT-----LTLIYNTVVK 126
Query: 101 WKRQE 105
K E
Sbjct: 127 DKDIE 131
>gnl|CDD|236522 PRK09450, cyaA, adenylate cyclase; Provisional.
Length = 830
Score = 28.0 bits (63), Expect = 8.0
Identities = 7/54 (12%), Positives = 17/54 (31%), Gaps = 9/54 (16%)
Query: 60 SLVYSPSVKNKKATYALVCQTLKHLSIIKQVLDSASILNSKWKRQEELVYILTY 113
+ + P + ++ + L Q SII + L ++ +
Sbjct: 451 TFIEVPPGRANRSGWYLYNQAPDPDSIIGH---------QPLEYNRYLNKLVAW 495
>gnl|CDD|224615 COG1701, COG1701, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 256
Score = 27.7 bits (62), Expect = 8.8
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 28/84 (33%)
Query: 215 HPLI-VNGCVFLQGKASSMVAAALAPKPGWKVLDACSAPGNKTVHLAALMKGKGKIVACE 273
HP+I VNG V AAL P+ + V LA K ++
Sbjct: 71 HPVISVNGNV-----------AALVPE--------------EVVELAEATGAKLEVNLFY 105
Query: 274 LNKERVRRLKDTIKLSGAANIEVL 297
+ERVR++ + +K GA EVL
Sbjct: 106 RTEERVRKIAEVLKEHGA--KEVL 127
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.135 0.391
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,888,503
Number of extensions: 1644476
Number of successful extensions: 1633
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1619
Number of HSP's successfully gapped: 84
Length of query: 335
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 238
Effective length of database: 6,635,264
Effective search space: 1579192832
Effective search space used: 1579192832
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.3 bits)